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Merge pull request #18 from AlexsLemonade/sjspielman/notebook-links
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Finalize notebook links in schedule
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sjspielman authored May 30, 2024
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18 changes: 9 additions & 9 deletions workshop/SCHEDULE.md
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Expand Up @@ -13,9 +13,9 @@ The planned schedule for the June 2024 Data Lab Virtual Training Workshop "Intro
|-------------|--------------------------------------------|----------------|
| **Day 1** | **2024-06-10** <br> _**Introduction to R and the Tidyverse**_ |
| 12:00 PM | Welcome, Introductions and Getting Started <br> [Workshop introduction slides (PDF)](#STUB) | Zoom: [Main Session](../software-setup/zoom-procedures.md) |
| 1:00 PM | [Introduction to base R](#../completed-notebooks/01-intro_to_base_R.nb.html) <br> [Introduction to R, RStudio, and RStudio Server slides (PDF)](#STUB) | Zoom: [Main Session](../software-setup/zoom-procedures.md)|
| 2:30 PM | [Introduction to `ggplot2`](#../completed-notebooks/02-intro_to_ggplot2.nb.html) | Zoom: [Main Session](../software-setup/zoom-procedures.md) |
| 3:30 PM | [Introduction to the `tidyverse`](#../completed-notebooks/03-intro_to_tidyverse.nb.html) | Zoom: [Main Session](../software-setup/zoom-procedures.md) |
| 1:00 PM | [Introduction to base R](../completed-notebooks/intro-to-R-tidyverse/01-intro_to_base_R.nb.html) <br> [Introduction to R, RStudio, and RStudio Server slides (PDF)](#STUB) | Zoom: [Main Session](../software-setup/zoom-procedures.md)|
| 2:30 PM | [Introduction to `ggplot2`](../completed-notebooks/intro-to-R-tidyverse/02-intro_to_ggplot2.nb.html) | Zoom: [Main Session](../software-setup/zoom-procedures.md) |
| 3:30 PM | [Introduction to the `tidyverse`](../completed-notebooks/intro-to-R-tidyverse/03-intro_to_tidyverse.nb.html) | Zoom: [Main Session](../software-setup/zoom-procedures.md) |
| 4:30 PM | Questions and introduction to the exercises | Zoom: [Breakout Rooms](../software-setup/zoom-procedures.md#using-breakout-rooms) |
| | [Exercise: Introduction to base R](https://github.com/AlexsLemonade/training-modules/blob/{{site.release_tag}}/intro-to-R-tidyverse/exercise_01-intro_to_base_R.Rmd) | |
| | [Exercise: Introduction to R](https://github.com/AlexsLemonade/training-modules/blob/{{site.release_tag}}/intro-to-R-tidyverse/exercise_02-intro_to_R.Rmd) | |
Expand All @@ -26,24 +26,24 @@ The planned schedule for the June 2024 Data Lab Virtual Training Workshop "Intro
| | | |
| **Day 2** | **2024-06-11** <br> _**Introduction to Single-cell RNA-seq, Day 1**_ |
| 12:00 PM | Introduction <br> [Introduction to scRNA-seq slides (PDF)](#STUB) | Zoom: [Main Session](../software-setup/zoom-procedures.md) |
| 12:30 PM | [scRNA-seq quantification with Alevin](#../completed-notebooks/01-scRNA_quant_qc.nb.html) | Zoom: [Main Session](../software-setup/zoom-procedures.md)|
| 1:30 PM | [Importing data and filtering cells](#../completed-notebooks/02-filtering_scRNA.nb.html) | Zoom: [Main Session](../software-setup/zoom-procedures.md) |
| 2:30 PM | [Normalization of expression data](#../completed-notebooks/03-normalizing_scRNA.nb.html) | Zoom: [Main Session](../software-setup/zoom-procedures.md) |
| 12:30 PM | [scRNA-seq quantification with Alevin](../completed-notebooks/scRNA-seq/01-scRNA_quant_qc.nb.html) | Zoom: [Main Session](../software-setup/zoom-procedures.md)|
| 1:30 PM | [Importing data and filtering cells](../completed-notebooks/scRNA-seq/02-filtering_scRNA.nb.html) | Zoom: [Main Session](../software-setup/zoom-procedures.md) |
| 2:30 PM | [Normalization of expression data](../completed-notebooks/scRNA-seq/03-normalizing_scRNA.nb.html) | Zoom: [Main Session](../software-setup/zoom-procedures.md) |
| 3:30 PM | Questions and introduction to the exercise | Zoom: [Breakout Rooms](../software-setup/zoom-procedures.md#using-breakout-rooms) |
| | [Exercise: scRNA-seq quantification](https://github.com/AlexsLemonade/training-modules/blob/{{site.release_tag}}/scRNA-seq/exercise_01-scrna_quant.Rmd) | |
| | Exercises and [consultation sessions](workshop-logistics.md#consultation-sessions) | [Slack channel](../software-setup/slack-procedures.md) |
| 5:00 PM | *Adjourn for the day* |
| | | |
| **Day 3** | **2024-06-12** <br> _**Introduction to Single-cell RNA-seq, Day 2**_ |
| 12:00 PM | [Dimension reduction & visualization](#../completed-notebooks/04-dimension_reduction_scRNA.nb.html) <br> [Dimension reduction and clustering slides (PDF)](#STUB) | Zoom: [Main Session](../software-setup/zoom-procedures.md)|
| 1:30 PM | [Clustering and marker identification](#../completed-notebooks/05-clustering_markers_scRNA.nb.html) | Zoom: [Main Session](../software-setup/zoom-procedures.md) |
| 12:00 PM | [Dimension reduction & visualization](../completed-notebooks/scRNA-seq/04-dimension_reduction_scRNA.nb.html) <br> [Dimension reduction and clustering slides (PDF)](#STUB) | Zoom: [Main Session](../software-setup/zoom-procedures.md)|
| 1:30 PM | [Clustering and marker identification](../completed-notebooks/scRNA-seq/05-clustering_markers_scRNA.nb.html) | Zoom: [Main Session](../software-setup/zoom-procedures.md) |
| 3:00 PM | Questions and introduction to the exercise | Zoom: [Breakout Rooms](../software-setup/zoom-procedures.md#using-breakout-rooms) |
| | [Exercise: scRNA-seq clustering](https://github.com/AlexsLemonade/training-modules/blob/{{site.release_tag}}/scRNA-seq/exercise_02-scrna_clustering.Rmd) | |
| | Exercises and [consultation sessions](workshop-logistics.md#consultation-sessions) | [Slack channel](../software-setup/slack-procedures.md) |
| 5:00 PM | *Adjourn for the day* |
| | | |
| **Day 4** | **2024-06-13** <br> _**Introduction to Single-cell RNA-seq, Day 3**_ | |
| 12:00 PM | [Cell type annotation](#../completed-notebooks/06-celltype_annotation.nb.html) <br> [Cell type annotation slides (PDF)](#STUB) | Zoom: [Main Session](../software-setup/zoom-procedures.md) |
| 12:00 PM | [Cell type annotation](../completed-notebooks/scRNA-seq/06-celltype_annotation.nb.html) <br> [Cell type annotation slides (PDF)](#STUB) | Zoom: [Main Session](../software-setup/zoom-procedures.md) |
| 2:30 PM | Questions and introduction to the exercise | Zoom: [Breakout Rooms](../software-setup/zoom-procedures.md#using-breakout-rooms) |
| | Exercises and [consultation sessions](workshop-logistics.md#consultation-sessions) | [Slack channel](../software-setup/slack-procedures.md)|
| | [Exercise: scRNA-seq cell type annotation](https://github.com/AlexsLemonade/training-modules/blob/{{site.release_tag}}/scRNA-seq/exercise_03-celltype.Rmd) | |
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